fedarko MetagenomeScope issues

fedarko / MetagenomeScope

Hierarchical scaffold/assembly graph web visualization tool. As of August 9, 2017, the official repository for this has moved to MarBL! Use that repository instead :)

http://github.com/marbl/MetagenomeScope

GNU General Public License v3.0

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issues

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Default color settings aren't reset when user closes page tab

#263 fedarko closed 7 years ago
3
Use originally scaled node height/width in viewer interface

#262 fedarko closed 7 years ago
1
Lay out connected components in parallel using multithreading

#261 fedarko closed 7 years ago
1
Create automated testing system

#260 fedarko closed 7 years ago
1
Make website for the tool

#259 fedarko closed 7 years ago
3
Add defined behavior for duplicate edges

#258 fedarko closed 7 years ago
3
Log use cases for the tool

#257 fedarko closed 7 years ago
1
Change default node/edge colors to get more contrast

#256 fedarko closed 7 years ago
0
Add "Bring & Go" interaction feature

#255 fedarko closed 7 years ago
1
Exaggerate differences of orders of magnitude in log scaling

#254 fedarko closed 7 years ago
2
Add "record session" feature to viewer interface

#253 fedarko closed 7 years ago
1
Don't perform layout on connected components containing just one node

#252 fedarko closed 7 years ago
2
Add command-line option to assume that contigs are unoriented

#251 fedarko closed 7 years ago
2
Add option to not add opacity to disabled buttons

#250 fedarko closed 7 years ago
1
Properly handle conflicting IDs/labels in search functionality

#249 fedarko closed 7 years ago
1
Properly handle duplicate IDs

#248 fedarko closed 7 years ago
0
Add "reset to default" feature for color settings

#247 fedarko closed 7 years ago
0
Visualize metagenome Jul. 27, 2017 & host on demo

#246 fedarko closed 7 years ago
1
Represent partial order alignment graphs using the tool

#245 fedarko closed 7 years ago
1
Add command-line option to assume contigs are already oriented

#244 fedarko closed 7 years ago
1
Support non-integer IDs in GFA files

#243 fedarko closed 7 years ago
1
Add AGP file export functionality for finished paths

#242 fedarko closed 7 years ago
3
Add more configurable colors for node groups

#241 fedarko closed 7 years ago
0
Add text explaining gradient preview (& general color selection mechanism) in color settings

#240 fedarko closed 7 years ago
0
Use cone trees for 3-dimensional visualization of certain graph regions?

#239 fedarko closed 7 years ago
1
Stop edges from being rendered as going through nodes in the viewer interface

#238 fedarko closed 7 years ago
1
Add import/export functionality for color specifications

#237 fedarko closed 7 years ago
3
Remove source/target-endpoint attrs for edges on collapsed node groups

#236 fedarko closed 7 years ago
1
Update Graphviz version from 2.38.0 without introducing edge routings through nodes

#235 fedarko closed 7 years ago
5
Add ability to colorize contigs by number of detected genes

#234 fedarko closed 7 years ago
1
Add color specification option to viewer interface

#233 fedarko closed 7 years ago
4
Allow user to graphically filter edges by multiplicity

#232 fedarko closed 7 years ago
7
Determine ways to "bias" SPQR tree decomposition toward separation pairs, etc. spanning larger horizontal distances in the linearized graph layout

#231 fedarko closed 7 years ago
1
Apply Tukey-fence-based outlier handling and relative scaling for node sizes

#230 fedarko closed 7 years ago
1
undirected edges without explicit source/target endpoint sometimes don't show up

#229 fedarko closed 7 years ago
1
Make lengths between nodes in P-metanodes bigger

#228 fedarko closed 7 years ago
1
Support using IDs instead of labels as key for AGP files

#227 fedarko closed 7 years ago
2
Make GC colorization availability, etc. dependent upon some DNA_PASSED flag and not the input filetype

#226 fedarko closed 7 years ago
0
Add screenshot(s) to README

#225 fedarko closed 7 years ago
0
Uncollapsing/collapsing metanodes in the decomposition modes don't unselect the to-be-removed child eles

#224 fedarko closed 7 years ago
2
Modify python script to output (implicit) uncollapsed node/edge count for singlecomponents

#223 fedarko closed 7 years ago
0
Include jQuery file, etc. in code as extra option with CDN

#222 fedarko closed 7 years ago
0
Better ways for "reconstructing" original graph in implicit SPQR view

#221 fedarko closed 7 years ago
4
self-directed edges occasionally don't show up

#220 fedarko closed 7 years ago
1
Modify SPQR tree rooting code to "boost" P-metanodes

#219 fedarko closed 7 years ago
1
Add makefile for SPQR script, and make the script platform-independent

#218 fedarko closed 7 years ago
2
Implement contig depth colorization

#217 fedarko closed 7 years ago
2
Add requisite library licenses/take necessary actions/etc to prepare for release

#216 fedarko closed 7 years ago
1
Implement "rooted" SPQR tree collapsing view

#215 fedarko closed 7 years ago
3
Parse GMLs with Networkx

#214 fedarko closed 7 years ago
1